| Barstar |
| ID: | 1433220455 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 90 (89) | ||
| Sequences: | 163 (126.8) | ||
| Seq/Len: | 1.831 | ||
| Nf(neff/√len): | 13.4 |
HHblits Results: (2013_03)
Sequences per length for each position, BEFORE the coverage/gap filter was applied
Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 1.831).
Sequences per length for each position, AFTER the coverage/gap filter was applied
Residue pairs sorted by coevolution strength:
Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.
| i | j | Scaled score | Prob |
| 18_H | 31_Y | 3.830 | 1.00 |
| 34_N | 37_A | 1.839 | 0.97 |
| 6_I | 75_F | 1.831 | 0.97 |
| 4_A | 84_D | 1.824 | 0.97 |
| 46_V | 50_L | 1.750 | 0.96 |
| 21_L | 25_L | 1.690 | 0.95 |
| 52_L | 75_F | 1.611 | 0.93 |
| 41_C | 45_W | 1.530 | 0.91 |
| 32_G | 37_A | 1.522 | 0.91 |
| 48_Y | 82_G | 1.505 | 0.90 |
| 35_L | 38_L | 1.461 | 0.88 |
| 17_L | 68_A | 1.414 | 0.86 |
| 52_L | 71_V | 1.381 | 0.84 |
| 54_W | 71_V | 1.369 | 0.83 |
| 9_E | 56_Q | 1.344 | 0.82 |
| 12_R | 33_E | 1.338 | 0.81 |
| 34_N | 44_G | 1.328 | 0.81 |
| 15_S | 26_A | 1.311 | 0.79 |
| 30_Y | 42_L | 1.303 | 0.79 |
| 13_S | 24_E | 1.285 | 0.77 |
| 38_L | 65_E | 1.285 | 0.77 |
| 77_E | 82_G | 1.258 | 0.75 |
| 7_N | 56_Q | 1.213 | 0.71 |
| 77_E | 81_E | 1.169 | 0.67 |
| 54_W | 65_E | 1.143 | 0.65 |
| 39_W | 48_Y | 1.141 | 0.65 |
| 24_E | 43_T | 1.137 | 0.64 |
| 17_L | 49_P | 1.127 | 0.63 |
| 14_I | 67_G | 1.107 | 0.61 |
| 25_L | 64_T | 1.096 | 0.60 |
| 69_E | 73_Q | 1.079 | 0.58 |
| 35_L | 74_V | 1.078 | 0.58 |
| 74_V | 83_C | 1.077 | 0.58 |
| 52_L | 59_Q | 1.074 | 0.58 |
| 8_G | 65_E | 1.068 | 0.57 |
| 31_Y | 37_A | 1.067 | 0.57 |
| 35_L | 56_Q | 1.052 | 0.55 |
| 54_W | 60_S | 1.047 | 0.55 |
| 28_P | 83_C | 1.046 | 0.55 |
| 57_F | 61_K | 1.029 | 0.53 |
| 29_E | 41_C | 1.026 | 0.53 |
| 37_A | 40_D | 1.021 | 0.52 |
| 4_A | 32_G | 1.011 | 0.51 |
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
- Text file of contact predictions (all 3L/2 predictions)
- Generate restraints for ROSETTA Structure Modeling
- Import to GREMLIN BETA - features includes ability to upload PDB and latest P(contact) calculation based on eLife 2015 fitting to PDB data.
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
| PDB | M | Cov | P(%) | HHΔ | |
| 2za4B | 2 | 0.9889 | 100 | 0.056 | Contact Map |
| 2cx6A | 2 | 0.9667 | 99.9 | 0.251 | Contact Map |
| 1wvvA | 2 | 0.3889 | 43.7 | 0.891 | Contact Map |
| 3hbeX | 1 | 0.3889 | 41.1 | 0.892 | Contact Map |
| 2cjlA | 2 | 0.3889 | 37.7 | 0.895 | Contact Map |
| 2uvjA | 1 | 0.4111 | 37.5 | 0.895 | Contact Map |
| 2vz8A | 2 | 0.7556 | 33.4 | 0.898 | Contact Map |
| 4ry1A | 2 | 0.4111 | 32.6 | 0.898 | Contact Map |
| 4mckA | 1 | 0.3889 | 31.7 | 0.899 | Contact Map |
| 1w5sA | 2 | 1 | 29 | 0.901 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)